Lucas Bourneuf

Ph.D, Data Scientist, Bioinformatician

Github Blog Links

Professional Experience

2021-2022: Python dev at Apside Brest.
2021: Python dev and conversationnal toolkit designer at SII Brest, Arkéa Crédit Mutuel.

2016-2019

Phd Student, in the DYLISS team on Formal Concept Analysis, Graph theory, and formal modeling. Supervisor: Dr Jacques Nicolas.

2016: Engineer (2 months) in the DYLISS team on formal methods applied to agronomic data. Supervisor: Dr Denis Tagu.

2015—2016: Internships (4 and 6 months) at INRIA-Bretagne in the DYLISS team on formal concept analysis, graph theory and constraint programming applied to biological data. Supervisor: Dr. Jacques Nicolas.

2012—2018: Participant to Hackathon Les 24h du code at Le Mans.; Subjects: AI, operation research, serial communication, user accessibility, network, testing. Rank=1 since 2017.

2014: Congress host at the CIGRÉ (international congress on electricity transport).

Education

2016-2019

PhD, Computer Science; Université de Rennes 1, Inria, DYLISS team

A search space of graph motifs for graph compression: From Powergraphs to triplet concepts, defended on December 17, 2019, supervised by Dr Jacques Nicolas

2014-2016: Master’s degree in Bioinformatics and Genomics; Université de Rennes 1 (rank=3/36)

2011-2014: Degree in Computer Sciences; Université du Maine (Le Mans) (rank=1/24)

Scientific Publication

ICFCA 2019: International Congress on Formal Concept Analysis. L. Bourneuf, J. Nicolas ; FCA in a Logical Programming Setting for Visualization Oriented (Power) Graph Compression. publication.

FCA4AI 2018 (workshop at IJCAI/ECAI): Formal Concept Analysis for Artificial Intelligence (acceptance rate 60%). L. Bourneuf ; An Answer Set Programming Environment for High-Level Specification and Visualization of FCA. publication, software.

ICFCA 2017: International Congress on Formal Concept Analysis (acceptance rate 30%). L. Bourneuf, J. Nicolas ; FCA in a Logical Programming Setting for Visualization Oriented (Power) Graph Compression.
Best paper award. publication.

Teaching & Science Popularization

Informal writings: Science popularization, research, project presentation, tutorial. For instance, a git tutorial and parsing advices on bioinfo-fr.net, the website of the french bioinformaticians community. I wrote an ASP tutorial in french, a tutorial to set up mail addresses with specific domain name, and modelizations of puzzles on my personal blog.

Teaching: git, python and java (master’s degree) (2015-2018); network (bachelor’s degree) (2017)

Science popularization: Participation & organization of the science popularization festival Sciences en Courts (2017, 2018, 2019)

Technical Experience

Mathematics & Graph Theory: PowerGrASP: Power Graph compression implementation — Python, ASP; rofetta: Convertion between the main contexts encoding of FCA — Python; graffunc: Graph of function — Python; phasme: CLI tool to handle graph in multiple formats — Python, ASP

Modeling: biseau: Implementation of a generalist model builder — Python, ASP; bakasp: Auto-generation of websites allowing users to explore combinatorial spaces — Python, ASP

Heuristic & Simulation: bfia: Meta-meta-heuristic validates unit tests with brainfuck — Python, C; NeuralWorld: Binary neural networks simulation — Python, ASP; gravastre: N-Body 2D simulation — C++, Qt, SPARQL

Language & Compilation: clyngor: Embedding of ASP in Python — Python, ASP; ACCC: Compiler of whatever to whatever — Python

Algorithmic: linear-choosens: Implementation of Vitter’s random sampling algorithm — Python; navicept: Implementation of ASP-based lattice navigation with GUI — Python, ASP; pynclose: Wrapper for nclose concept enumeration algorithm — Python, C